Sounds like she does want you to pursue the relationship, but going through a natural adjustment.

I think her voicing her concerns is healthly. Just as you needed to voice yours when you were adjusting to the situation. Communication is key.

Is it possible your angry because you have been open and honest and she wasn't at the start? Something to think about. However, taking the time to reassure her and let her know your not leaving is the best way to handle this.